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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTTTGAGTATCAG

Basic information

species Glycine max
transcript GLYMA04G39390.1
intron # 3
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|298163265|gb|HO011998.1|HO011998
EST:     GTTTGTGCTCATGGCAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGG
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGG
EST: gi|208289150|gb|GE081467.1|GE081467
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|298180620|gb|HO025707.1|HO025707
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAGTTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|16997114|gb|BM086486.1|BM086486
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|298166083|gb|HO009054.1|HO009054
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|120531240|gb|EH259373.1|EH259373
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|213605660|gb|DB972308.1|DB972308
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|192322448|gb|FK014929.1|FK014929
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|33388074|gb|CA851281.1|CA851281
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|18735504|gb|BM528801.1|BM528801
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|209726906|gb|BW680261.1|BW680261
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|208063827|gb|GD861981.1|GD861981
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
EST: gi|192326456|gb|FK017713.1|FK017713
EST:     GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgttt ... ctttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTTTGAGTATCAG
                              ctctacttttgttcac  CT-rich tract
                    atttgaaaaa  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGACTTGTAATTAGAAGTTTGAGTATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT